Contacts of the helix formed by residues 89 - 119 (chain D) in PDB entry 2QJK
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with GLY 89 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87D VAL 3.0 2.8 + - - -
88D ASN* 1.3 73.2 - - - +
90D GLY* 1.3 64.6 + - - +
91D PHE* 3.3 22.3 - - - -
92D MET* 3.2 8.8 + - - +
93D LEU* 3.0 28.9 + - - +
33F PRO* 6.1 4.5 - - - -
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Residues in contact with GLY 90 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83D ILE* 3.1 33.7 - - - +
84D MET* 4.5 0.2 - - - -
87D VAL* 2.9 17.7 + - - -
88D ASN 3.1 1.6 - - - -
89D GLY* 1.3 75.2 - - - +
91D PHE* 1.3 68.2 + - - +
93D LEU* 2.8 18.0 + - - +
94D ARG* 2.9 15.6 + - - +
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Residues in contact with PHE 91 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83D ILE 3.6 5.3 + - - -
84D MET* 3.5 37.8 + - + +
87D VAL 5.5 0.4 - - - -
89D GLY* 4.1 19.5 - - - -
90D GLY* 1.3 77.2 - - - +
92D MET* 1.3 108.7 + - + +
94D ARG* 3.6 1.4 + - - +
95D TYR* 3.3 29.9 + + + -
220E GLU* 5.6 3.1 - - - +
222E LYS* 3.2 39.5 - - + -
225E ALA* 3.8 22.7 - - + -
226E ARG* 3.6 25.6 - - + -
229E ALA* 5.3 2.7 - - + -
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Residues in contact with MET 92 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89D GLY* 3.2 10.2 + - - +
90D GLY 3.1 0.8 - - - -
91D PHE* 1.3 114.1 - - + +
93D LEU* 1.3 59.2 + - + +
95D TYR* 4.2 2.2 - - + +
96D LEU* 3.1 40.3 + - + +
264D PHE* 5.4 10.1 - - - -
267D VAL* 4.3 22.0 - - + +
268D GLY* 5.7 1.3 - - - -
226E ARG* 3.5 29.4 - - + +
229E ALA* 4.2 15.9 - - + -
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Residues in contact with LEU 93 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61D THR* 4.1 24.6 - - + -
64D VAL* 3.4 30.7 - - + -
65D LEU* 4.1 16.1 - - + +
83D ILE* 6.2 0.2 - - + -
87D VAL* 5.2 1.6 - - + -
88D ASN 4.8 0.7 - - - +
89D GLY 3.0 18.8 + - - +
90D GLY* 2.8 12.5 + - - +
92D MET* 1.3 78.7 - - + +
94D ARG* 1.3 69.2 + - - +
96D LEU* 3.0 12.3 + - + +
97D HIS* 2.9 21.3 + - - +
33F PRO* 4.8 11.9 - - + +
34F LEU* 4.5 14.8 - - + -
37F GLN* 4.1 18.8 - - + -
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Residues in contact with ARG 94 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65D LEU* 4.1 18.6 - - + +
77D PHE* 6.0 2.8 - - - -
80D VAL* 3.3 32.1 - - + +
81D GLU* 5.3 0.8 + - - -
83D ILE* 4.9 3.1 - - + -
84D MET* 3.6 44.0 - - + +
90D GLY 2.9 8.6 + - - +
91D PHE 3.8 0.2 - - - +
93D LEU* 1.3 78.0 - - - +
95D TYR* 1.3 72.5 + - - +
97D HIS* 2.9 11.1 + - - +
98D ALA* 3.0 14.7 + - - -
150D PRO* 3.9 12.3 - - - +
279D ASN 5.8 1.6 + - - -
280D TYR* 4.4 21.0 + - - -
502D HEM 2.9 55.8 + - - +
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Residues in contact with TYR 95 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84D MET* 3.5 22.0 - - + -
91D PHE* 3.3 22.6 + + + +
92D MET* 4.2 2.5 - - - +
94D ARG* 1.3 87.0 - - - +
96D LEU* 1.3 62.8 + - - +
98D ALA* 4.6 4.7 - - + -
99D ASN* 2.9 37.0 + - - +
267D VAL* 3.9 16.6 - - + -
271D PRO* 3.6 21.3 - - + -
272D ASN* 3.1 28.6 + - - -
280D TYR* 3.7 4.5 - - - -
105E LYS* 2.7 19.8 + - - -
220E GLU* 2.6 23.9 + - - -
226E ARG* 3.5 31.9 - - + -
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Residues in contact with LEU 96 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57D LEU* 4.5 14.2 - - + +
58D GLN* 4.0 0.5 - - - +
61D THR* 4.5 13.9 - - + -
92D MET* 3.1 39.2 + - + +
93D LEU* 3.0 18.6 + - + +
95D TYR* 1.3 75.9 - - - +
97D HIS* 1.3 54.1 + - - +
99D ASN 3.8 0.2 - - - -
100D GLY* 2.7 33.3 + - - -
263D PHE* 3.4 37.9 - - + -
264D PHE* 4.2 22.4 - - + -
267D VAL* 4.0 15.0 - - + -
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Residues in contact with HIS 97 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57D LEU* 6.0 0.2 - - - -
58D GLN* 2.9 64.1 + - - +
61D THR* 3.2 21.2 + - - +
62D GLY* 3.7 6.7 + - - -
65D LEU* 3.6 21.1 - - + -
93D LEU 2.9 5.2 + - - +
94D ARG* 2.9 9.4 + - - +
96D LEU* 1.3 75.6 - - - +
98D ALA* 1.3 63.7 + - - +
100D GLY 3.3 0.2 + - - -
101D ALA* 3.3 2.9 + - - +
502D HEM 2.0 89.1 + + + +
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Residues in contact with ALA 98 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94D ARG* 3.0 16.3 + - - +
95D TYR* 3.9 7.6 - - + +
97D HIS* 1.3 74.5 - - - +
99D ASN* 1.3 68.4 + - - +
100D GLY 2.8 3.8 - - - -
101D ALA* 2.8 25.3 + - - +
102D SER* 3.6 4.6 + - - -
502D HEM 3.8 34.5 - - + +
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Residues in contact with ASN 99 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95D TYR* 2.9 33.7 + - - +
98D ALA* 1.3 78.8 - - - +
100D GLY* 1.3 62.5 + - - +
102D SER* 3.3 10.5 + - - -
103D LEU 3.0 19.2 + - - -
263D PHE* 3.6 24.8 - - + -
266D ILE* 4.1 13.7 - - - +
267D VAL* 4.3 10.0 - - + +
271D PRO* 3.2 43.0 + - - +
274D LEU* 4.2 16.1 - - - +
503D LOP 4.3 5.6 - - + +
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Residues in contact with GLY 100 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54D CYS* 4.2 4.0 - - - -
57D LEU* 4.5 7.0 - - - -
58D GLN* 3.0 22.3 - - - +
96D LEU 2.7 16.9 + - - -
98D ALA 2.8 1.0 + - - -
99D ASN* 1.3 79.3 - - - +
101D ALA* 1.3 51.7 + - - +
103D LEU* 3.4 4.4 + - - +
104D PHE* 2.8 34.3 + - - +
263D PHE* 4.1 11.0 - - - -
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Residues in contact with ALA 101 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58D GLN* 3.4 4.4 + - - -
97D HIS 3.3 6.8 + - - +
98D ALA 2.8 11.3 + - - +
100D GLY* 1.3 72.9 - - - +
102D SER* 1.3 64.8 + - - +
104D PHE* 3.0 12.0 + - - +
105D PHE* 2.9 30.0 + - + -
143D ALA* 5.5 0.4 - - + -
297D TYR* 4.3 13.9 - - + +
502D HEM 3.8 41.3 - - + -
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Residues in contact with SER 102 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98D ALA 3.9 5.9 + - - -
99D ASN* 3.3 11.0 + - - -
101D ALA* 1.3 72.9 - - - +
103D LEU* 1.3 69.5 + - - +
105D PHE* 2.9 3.1 + - - +
106D ILE* 2.8 28.3 + - - +
274D LEU* 3.4 37.1 - - - +
296D TRP* 3.8 25.4 + - - +
297D TYR* 4.3 7.8 - - - -
503D LOP 4.4 1.6 - - - -
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Residues in contact with LEU 103 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47D TRP* 5.9 2.2 - - + -
50D VAL* 4.5 11.4 - - + -
53D PHE* 4.9 11.7 - - + -
54D CYS* 3.5 21.8 - - - -
57D LEU* 5.3 2.0 - - + -
99D ASN 3.0 11.4 + - - +
100D GLY 3.5 7.2 - - - +
102D SER* 1.3 78.1 - - - +
104D PHE* 1.3 64.0 + - - +
106D ILE* 3.3 7.6 + - + +
107D ALA* 2.9 24.8 + - + +
259D VAL* 4.1 17.9 - - + -
260D LEU* 4.9 2.0 - - + -
263D PHE* 4.1 28.7 - - + -
503D LOP 3.4 43.6 - - + +
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Residues in contact with PHE 104 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51D LEU* 3.4 38.6 - - + +
54D CYS* 3.6 19.0 - - + -
55D LEU* 4.3 25.1 - - + -
58D GLN* 4.3 8.7 - - + -
100D GLY 2.8 14.3 + - - +
101D ALA* 3.0 14.8 - - - +
103D LEU* 1.3 76.8 - - - +
105D PHE* 1.3 58.9 + + + +
108D VAL* 3.3 17.2 + - - +
139D MET* 3.5 33.2 - - + -
205D ILE* 5.2 1.6 - - + -
501D HEM 4.1 15.7 - - + -
502D HEM 3.6 41.1 - - + -
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Residues in contact with PHE 105 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101D ALA* 2.9 19.3 + - + -
102D SER 2.9 7.2 + - - +
104D PHE* 1.3 74.1 - - + +
106D ILE* 1.3 68.2 + - - +
107D ALA 2.6 3.9 + - - -
108D VAL* 2.7 33.0 + - + +
109D TYR* 3.0 25.7 + + + -
136D TYR* 4.3 7.9 - + - -
139D MET* 4.0 20.9 - - + -
140D MET* 3.9 33.2 - - + -
143D ALA* 3.7 24.0 - - + -
296D TRP* 4.1 2.2 - - + -
297D TYR* 3.2 60.8 - + + -
298D PHE* 5.1 0.4 - + - -
502D HEM 5.5 2.5 - - + -
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Residues in contact with ILE 106 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47D TRP* 5.7 1.8 - - + -
102D SER* 2.8 26.7 + - - +
103D LEU* 3.6 7.0 - - + +
105D PHE* 1.3 71.8 - - - +
107D ALA* 1.3 62.0 + - - +
109D TYR* 3.7 6.5 + - - +
110D LEU* 3.3 37.0 + - + +
274D LEU* 5.1 5.4 - - + -
296D TRP* 3.5 26.6 - - + -
503D LOP 4.1 51.4 - - + -
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Residues in contact with ALA 107 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47D TRP* 4.2 25.0 - - + +
50D VAL* 4.5 14.1 - - + +
51D LEU* 3.6 20.6 - - + +
54D CYS* 5.2 0.2 - - - -
103D LEU* 2.9 16.9 + - + +
104D PHE* 3.5 7.4 - - - +
105D PHE 2.6 4.4 + - - -
106D ILE* 1.3 72.5 - - - +
108D VAL* 1.3 54.2 + - - +
110D LEU* 3.0 5.2 + - - +
111D HIS* 2.7 35.9 + - - +
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Residues in contact with VAL 108 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51D LEU* 3.2 27.6 - - + +
104D PHE 3.3 1.1 + - - +
105D PHE* 2.7 57.7 + - + +
107D ALA* 1.3 72.3 - - - +
109D TYR* 1.3 63.6 + - + +
111D HIS* 3.4 7.7 - - - +
112D ILE* 2.5 42.8 + - + +
136D TYR* 4.6 4.7 - - + -
139D MET* 3.6 24.2 - - + -
501D HEM 4.3 19.1 - - + -
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Residues in contact with TYR 109 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105D PHE* 3.0 39.4 + + + +
106D ILE* 4.0 5.2 - - - +
108D VAL* 1.3 76.9 - - + +
110D LEU* 1.3 58.9 + - + +
112D ILE* 4.3 11.7 - - + -
113D PHE* 2.8 43.1 + + + -
136D TYR* 2.7 42.2 + + - -
140D MET* 5.0 0.2 - - - -
296D TRP* 4.3 19.3 - + - -
297D TYR* 2.9 27.5 + - - -
300D PRO* 5.1 1.7 - - + +
301D PHE* 3.9 5.9 - + - -
343D MET* 6.5 0.2 - - + -
374D PHE* 3.7 43.2 - + + -
503D LOP 4.5 13.5 - - + -
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Residues in contact with LEU 110 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44D MET* 5.0 7.9 - - - +
47D TRP* 3.4 53.2 - - + -
106D ILE* 3.3 26.2 + - + +
107D ALA 3.0 7.5 + - - +
109D TYR* 1.3 76.7 - - - +
111D HIS* 1.3 57.6 + - - +
113D PHE* 4.1 2.6 - - - +
114D ARG* 2.9 33.7 + - - +
503D LOP 4.4 64.4 - - + +
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Residues in contact with HIS 111 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47D TRP* 4.2 10.0 - - + +
48D GLY* 3.8 10.9 + - - -
51D LEU* 3.4 15.5 - - + -
107D ALA 2.7 20.2 + - - +
108D VAL* 3.4 8.5 - - - +
110D LEU* 1.3 72.8 - - - +
112D ILE* 1.3 62.3 + - - +
114D ARG* 3.3 20.1 + - - +
115D GLY* 3.1 17.3 + - - -
129D TRP* 5.8 0.2 - - - -
501D HEM 1.9 118.1 + + + +
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Residues in contact with ILE 112 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108D VAL 2.5 26.7 + - - +
109D TYR* 3.5 13.2 - - + +
111D HIS* 1.3 69.6 - - - +
113D PHE* 1.3 72.4 + - + +
115D GLY* 2.8 13.7 + - - -
116D LEU* 3.0 31.1 + - + +
129D TRP* 4.3 9.5 - - + -
133D MET* 5.5 1.1 - - - -
136D TYR* 4.2 31.6 - - + -
343D MET* 4.3 26.2 - - + -
501D HEM 3.6 36.1 - - + -
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Residues in contact with PHE 113 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109D TYR* 2.8 30.4 + + + +
110D LEU 4.1 0.9 - - - +
112D ILE* 1.3 75.6 - - + +
114D ARG* 1.3 66.8 + - - +
116D LEU* 3.1 18.0 + - + +
117D TYR* 3.0 25.3 + - - +
367D PHE* 3.8 15.7 - + - -
370D LEU* 4.1 26.9 - - + -
371D ALA* 4.2 12.1 - - - -
374D PHE* 3.7 45.8 - + + -
400D TRP* 4.7 7.2 - + - -
503D LOP 3.5 53.8 - - + -
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Residues in contact with ARG 114 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44D MET* 3.3 53.2 + - + +
45D TRP* 3.5 25.6 - - - -
110D LEU 2.9 21.0 + - - +
111D HIS* 3.3 17.7 + - - +
113D PHE* 1.3 77.3 - - - +
115D GLY* 1.3 76.5 + - - +
117D TYR* 3.4 0.7 + - - +
118D TYR* 3.1 35.8 + - + -
120D SER* 4.0 10.9 + - - -
501D HEM 2.9 70.3 + - - +
503D LOP 3.9 14.5 - - + +
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Residues in contact with GLY 115 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111D HIS 3.1 5.4 + - - -
112D ILE 2.8 8.5 + - - -
114D ARG* 1.3 93.0 - - - +
116D LEU* 1.3 61.2 + - - -
118D TYR 3.2 0.9 + - - -
119D GLY 3.0 20.6 + - - -
120D SER* 3.1 21.0 + - - -
121D TYR* 3.7 8.1 - - - -
129D TRP* 4.5 8.3 - - - -
501D HEM 5.3 1.6 - - - -
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Residues in contact with LEU 116 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112D ILE* 3.0 25.2 + - + +
113D PHE* 3.1 33.0 + - + +
115D GLY* 1.3 74.3 - - - +
117D TYR* 1.3 60.9 + - - +
119D GLY 3.9 1.9 + - - -
121D TYR* 3.4 33.8 + - + -
129D TRP* 3.8 25.5 - - + -
343D MET* 4.9 6.1 - - + -
346D VAL* 4.1 15.0 - - + -
363D PHE* 3.6 12.0 - - - -
367D PHE* 4.0 11.4 - - + -
370D LEU* 4.2 13.9 - - + -
400D TRP* 6.0 0.9 - - + -
403D TYR* 4.9 6.2 + - + +
404D PHE* 4.3 15.7 - - + -
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Residues in contact with TYR 117 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113D PHE 3.0 10.2 + - - +
114D ARG 3.7 3.1 - - - +
116D LEU* 1.3 79.4 - - - +
118D TYR* 1.3 88.8 + + - +
119D GLY 3.5 0.6 + - - -
357D GLY* 3.0 33.2 + - - -
358D ARG* 3.5 23.8 - - - -
363D PHE* 4.3 7.2 - + - -
364D LYS* 4.5 16.0 + - + +
367D PHE* 3.3 49.8 - + + -
368D TRP* 4.3 13.6 + + - -
503D LOP 2.8 49.4 + - - +
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Residues in contact with TYR 118 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42D ASN* 3.4 13.0 + - - -
44D MET* 4.8 3.3 - - + +
45D TRP* 3.9 18.8 - + + -
114D ARG* 3.1 36.9 + - + +
117D TYR* 1.3 95.6 - + - +
119D GLY* 1.3 64.1 + - - +
120D SER* 3.1 12.6 + - - +
222D ASN* 3.2 16.5 + - - +
223D ASN 4.4 0.4 - - - +
224D PRO* 3.4 45.3 - - + -
355D ARG* 3.7 11.8 - - - +
356D SER* 3.8 12.9 - - - -
357D GLY 4.1 2.5 - - - +
358D ARG* 4.4 4.5 - - - -
503D LOP 2.9 52.0 + - - -
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Residues in contact with GLY 119 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115D GLY 3.0 5.6 + - - -
116D LEU 3.9 2.6 + - - -
117D TYR 3.5 3.8 + - - -
118D TYR* 1.3 77.3 - - - +
120D SER* 1.3 56.9 + - - +
121D TYR* 3.0 16.2 - - - -
122D LYS* 3.0 39.0 + - - +
355D ARG* 3.5 28.6 + - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il